<img src="vignettes/Gviz-logo.png" align="right" alt="" width="120" />
# _Gviz_ - Plotting data and annotation information along genomic coordinates
## Software status
| In BioC | Travis CI | Bioc ([devel](http://bioconductor.org/packages/devel/bioc/html/Gviz.html)) | Bioc ([release](http://bioconductor.org/packages/release/bioc/html/Gviz.html)) | Coverage |
|:--------|:---------:|:--------------:|:----------------:|:--------:|
| [](http://bioconductor.org/packages/Gviz) | [](https://travis-ci.org/ivanek/Gviz) | [](https://bioconductor.org/checkResults/devel/bioc-LATEST/Gviz) | [](https://bioconductor.org/checkResults/release/bioc-LATEST/Gviz) | [](https://codecov.io/github/ivanek/Gviz) |
## Authors
- Florian Hahne
- Steffen Durinck
- Robert Ivanek
- Arne Mueller
- Steve Lianoglou
- Ge Tan
- Lance Parsons
- Shraddha Pai
## Overview
Genomic data analyses requires integrated visualization of known genomic information and new experimental data. Gviz uses the [biomaRt](http://bioconductor.org/packages/biomaRt/) and the [rtracklayer](http://bioconductor.org/packages/rtracklayer/) packages to perform live annotation queries to [Ensembl](https://www.ensembl.org/) and [UCSC](https://genome.ucsc.edu) and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data.
## Installation
### Release version
```
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Gviz", version = "release")
```
### Developmental version
```
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Gviz", version = "devel")
```
### Github
```
if (!requireNamespace("devtools", quietly = TRUE))
install.packages("devtools")
devtools::install_github("ivanek/Gviz")
```
## Citation
- Hahne F, Ivanek R (2016). "Statistical Genomics: Methods and Protocols." In Mathé E, Davis S (eds.), chapter Visualizing Genomic Data Using Gviz and Bioconductor, 335–351. Springer New York, New York, NY. ISBN 978-1-4939-3578-9, doi: [10.1007/978-1-4939-3578-9_16](http://dx.doi.org/10.1007/978-1-4939-3578-9_16).
